Cloning and expression of an ABSCISIC ACID‐INSENSITIVE 3 (ABI3) gene homologue of yellow‐cedar (Chamaecyparis nootkatensis)

Lazarova, G.; Zeng, Ying; Kermode, Allison R.

doi:10.1093/jexbot/53.371.1219

Cited by 21 publications

(12 citation statements)

References 6 publications

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“…Furthermore, it was interesting that of the 1,786 transcription factors, only two belonged to the AB13/VP1-2 family, and both of these fell into the group of nine genes expressed, almost uniquely, during germination. ABI3/VP1 family members are known to play a role as intermediaries in regulating ABA-responsive genes (Lazarova et al, 2002); therefore, this distinct expression pattern suggests that these two transcription factors are likely to play a critical role during early germination in rice. Other putative ''germination-specific'' transcription factors showed some limited expression across other tissues/treatments, with three, including one AP2-EREBP family member, .…”

Section: Transient Changes In the Transcriptome Indicate That 3 H Maymentioning

confidence: 99%

Mapping Metabolic and Transcript Temporal Switches during Germination in Rice Highlights Specific Transcription Factors and the Role of RNA Instability in the Germination Process

et al. 2008

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Transcriptome and metabolite profiling of rice (Oryza sativa) embryo tissue during a detailed time course formed a foundation for examining transcriptional and posttranscriptional processes during germination. One hour after imbibition (HAI), independent of changes in transcript levels, rapid changes in metabolism occurred, including increases in hexose phosphates, tricarboxylic acid cycle intermediates, and g-aminobutyric acid. Later changes in the metabolome, including those involved in carbohydrate, amino acid, and cell wall metabolism, appeared to be driven by increases in transcript levels, given that the large group (over 6,000 transcripts) observed to increase from 12 HAI were enriched in metabolic functional categories. Analysis of transcripts encoding proteins located in the organelles of primary metabolism revealed that for the mitochondrial gene set, a greater proportion of transcripts peaked early, at 1 or 3 HAI, compared with the plastid set, and notably, many of these transcripts encoded proteins involved in transport functions. One group of over 2,000 transcripts displayed a unique expression pattern beginning with low levels in dry seeds, followed by a peak in expression levels at 1 or 3 HAI, before markedly declining at later time points. This group was enriched in transcription factors and signal transduction components. A subset of these transiently expressed transcription factors were further interrogated across publicly available rice array data, indicating that some were only expressed during the germination process. Analysis of the 1-kb upstream regions of transcripts displaying similar changes in abundance identified a variety of common sequence motifs, potential binding sites for transcription factors. Additionally, newly synthesized transcripts peaking at 3 HAI displayed a significant enrichment of sequence elements in the 3# untranslated region that have been previously associated with RNA instability. Overall, these analyses reveal that during rice germination, an immediate change in some metabolite levels is followed by a two-step, largescale rearrangement of the transcriptome that is mediated by RNA synthesis and degradation and is accompanied by later changes in metabolite levels.

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Section: Transient Changes In the Transcriptome Indicate That 3 H Maymentioning

confidence: 99%

Mapping Metabolic and Transcript Temporal Switches during Germination in Rice Highlights Specific Transcription Factors and the Role of RNA Instability in the Germination Process

et al. 2008

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“…ABI3 is a major component of the ABA signaling pathway in seeds and a major determinant of embryo ABA sensitivity. Examples for ABI3/VP1 gene expression during seed maturation and dormancy induction include gymnosperms like yellowcedar (CnABI3, Callitropis nootkatensis = Chamaecyparis nootkatensis, Lazarova et al 2002), monocots (several cereals, e.g., Holdsworth et al 1999;Hollung et al 1997;McCarty et al 1989), asterids (e.g., Chandler and Bartels 1997;Shiota et al 1998) and rosids (e.g., Gagete et al 2009;Nambara et al 1995;Rohde et al 2002;Stephen et al 2004). A VP1-dependent positive feedback mechanism regulates ABA-induced VP1 expression during maize and wheat seed maturation (Cao et al 2007;Utsugi et al 2008).…”

Section: Introductionmentioning

confidence: 99%

Cross-species approaches to seed dormancy and germination: conservation and biodiversity of ABA-regulated mechanisms and the Brassicaceae DOG1 genes

et al. 2009

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Seed dormancy is genetically determined with substantial environmental influence mediated, at least in part, by the plant hormone abscisic acid (ABA). The ABA-related transcription factor ABI3/VP1 (ABA INSENSITIVE3/VIVIPAROUS1) is widespread among green plants. Alternative splicing of its transcripts appears to be involved in regulating seed dormancy, but the role of ABI3/VP1 goes beyond seeds and dormancy. In contrast, DOG1 (DELAY OF GERMINATION 1), a major quantitative trait gene more specifically involved in seed dormancy, was so far only known from Arabidopsis thaliana (AtDOG1) and whether it also has roles during the germination of non-dormant seeds was not known. Seed germination of Lepidium sativum ('garden cress') is controlled by ABA and its antagonists gibberellins and ethylene and involves the production of apoplastic hydroxyl radicals. We found orthologs of AtDOG1 in the Brassicaceae relatives L. sativum (LesaDOG1) and Brassica rapa (BrDOG1) and compared their gene structure and the sequences of their transcripts expressed in seeds. Tissue-specific analysis of LesaDOG1 transcript levels in L. sativum seeds showed that they are degraded upon imbibition in the radicle and the micropylar endosperm. ABA inhibits germination in that it delays radicle protrusion and endosperm weakening and it increased LesaDOG1 transcript levels during early germination due to enhanced transcription and/or inhibited degradation. A reduced decrease in LesaDOG1 transcript levels upon ABA treatment is evident in the late germination phase in both tissues. This temporal and ABA-related transcript expression pattern suggests a role for LesaDOG1 in the control of germination timing of non-dormant L. sativum seeds. The possible involvement of the ABA-related transcription factors ABI3 and ABI5 in the regulation of DOG1 transcript expression is discussed. Other species of the monophyletic genus Lepidium showed coat or embryo dormancy and are therefore highly suited for comparative seed biology.

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“…All four regulatory genes from Arabidopsis, FUS3, LEC1, ABI3 and LEC2, have been cloned and sequenced (Giraudat et al 1992;Luerssen et al 1998;Lotan and Harada 1998;Stone et al 2001). Genes homologous to ABI3 and VP1, which are the prototypes of that class of gene, have been identified in various plant species (summarized by Kurup et al 2000;Lazarova 2002). The corresponding proteins are all conserved in the B1, B2 and especially in the B3 regions, suggesting a general requirement of these basic domains for the function of ABI3/VP1-like genes (Holdsworth et al 1999).…”

Section: Introductionmentioning

confidence: 99%

Seed-specific transcription factors ABI3 and FUS3: molecular interaction with DNA

Mönke

Altschmied

Tewes

et al. 2004

Planta

164

141

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In Arabidopsis thaliana (L.) Heynh. the seed-specific transcription factors ABI3 and FUS3 have key regulatory functions during the development of mature seeds. The highly conserved RY motif [DNA motif CATGCA(TG)], present in many seed-specific promoters, is an essential target of both regulators. Here we show that, in vitro, the full-length ABI3 protein, as well as FUS3 protein, is able to bind to RY-DNA and that the B3 domains of both transcription factors are necessary and sufficient for the specific interaction with the RY element. Flanking sequences of the RY motif modulate the binding, but the presence of an RY sequence alone allows the specific interaction of ABI3 and FUS3 with the target in vitro. Transcriptional activity of ABI3 and FUS3, measured by transient promoter activation, requires the B3 DNA-binding domain and an activation domain. In addition to the known N-terminal-located activation domain, a second transcription activation domain was found in the B1 region of ABI3.

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Cloning and expression of an ABSCISIC ACID‐INSENSITIVE 3 (ABI3) gene homologue of yellow‐cedar (Chamaecyparis nootkatensis)

Cited by 21 publications

References 6 publications

Mapping Metabolic and Transcript Temporal Switches during Germination in Rice Highlights Specific Transcription Factors and the Role of RNA Instability in the Germination Process

Mapping Metabolic and Transcript Temporal Switches during Germination in Rice Highlights Specific Transcription Factors and the Role of RNA Instability in the Germination Process

Cross-species approaches to seed dormancy and germination: conservation and biodiversity of ABA-regulated mechanisms and the Brassicaceae DOG1 genes

Seed-specific transcription factors ABI3 and FUS3: molecular interaction with DNA

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